Detailed view for PVX_119615

Basic information

TDR Targets ID: 270220
Plasmodium vivax, hypothetical protein, conserved

Source Database / ID:  PlasmoDB 

pI: 8.8337 | Length (AA): 4067 | MW (Da): 442476 | Paralog Number: 0

Signal peptide: N | GPI Anchor: N | Predicted trans-membrane segments: 0

Druggability Group : DG5

Targets have been classified into druggability groups (DG) according to their druggability score in network driven prioritizations. DGs range from 1 to 5; the higher the group number, the higher the chance of the target to be druggable

Pfam domains

PF13831   PHD-finger
PF13832   PHD-zinc-finger like domain

Gene Ontology

Mouse over links to read term descriptions.
GO:0008270   zinc ion binding  
GO:0005515   protein binding  

Metabolic Pathways

This gene is not mapped to any metabolic pathway in KEGG.

Structural information

Modbase 3D models:

There are 10 models calculated for this protein. More info on these models, including the models themselves is available at: Modbase

Target Beg Target End Template Template Beg Template End Identity Evalue Model Score MPQS zDope
194 240 4lk9 (A) 263 310 30.00 0.23 0.34 0.213156 0.85
196 240 3asl (A) 318 363 22.00 0.0015 0.32 0.123665 0.92
1105 1618 1lp3 (A) 80 572 10.00 0 0.01 -0.0442169 1.66
1271 1303 2lpc (A) 160 185 58.00 0.82 0.08 0.265514 0.63
1866 1981 1w9r (A) 1 119 17.00 0.72 0.02 0.235122 -0.82
3313 3390 1mey (C) 5 84 22.00 0.00064 0.01 0.209779 -0.47
3643 3715 2l43 (A) 5 76 26.00 0.017 0.74 0.313349 0.21
3952 4002 2pne (A) 22 75 39.00 0.053 0.12 0.48594 -1.29
3956 3991 3bog (C) 3 76 53.00 0.0036 0.2 0.613252 -0.62
4030 4064 2dmd (A) 8 42 6.00 0.73 0 -0.0247941 0.66

Help me make sense of these data.

Target Beg: first modeled residue
Target End: last modeled residue
Template: template structure used for modelling (PDB accession and chain)
Template Beg: first template residue in target-template alignment
Template End: last template residue in target-template alignment
Identity: sequence identity
Evalue: E value for target-template hit
Model Score: GA341 score (>0.7 for reliable model)
MPQS: ModPipe Quality Score (>1.1 for reliable model)
zDope: zDope Score (negative for reliable model)

A more detailed description of these scores is available at the Modbase Model Evaluation Help Pages, and in the papers referenced therein.

PDB Structures:

No structure availble in the PDB for this protein

Expression

Upregulation Percent Ranking Stage Dataset
Mid 40-60% percentile intraerythrocytic - 6 hs, intraerythrocytic - 12 hs, intraerythrocytic - 18 hs, intraerythrocytic - 24 hs, intraerythrocytic - 30 hs, intraerythrocytic - 40 hs. Zhu L
Upregulation Percent Ranking Stage Dataset
Lower 20-40% percentile intraerythrocytic - 36 hs, intraerythrocytic - 48 hs. Zhu L
Show/Hide expression data references
  • Zhu L New insights into the Plasmodium vivax transcriptome using RNA-Seq.

Orthologs

Ortholog group members (OG5_158082)

Species Accession Gene Product
Plasmodium berghei PBANKA_0408300   phd finger protein, putative
Plasmodium falciparum PF3D7_0310200   phd finger protein, putative
Plasmodium knowlesi PKNH_0832500   phd finger protein, putative
Plasmodium vivax PVX_119615   hypothetical protein, conserved
Plasmodium yoelii PY06128   hypothetical protein
Plasmodium yoelii PY05936   PHD-finger, putative
Theileria parva TP04_0573   hypothetical protein

Essentiality

PVX_119615 has one or more orthologs with essentiality data
Gene/Ortholog Organism Phenotype Source Study
PBANKA_0408300 Plasmodium berghei Slow plasmo
Show/Hide essentiality data references
  • neb C. elegans RNAi phenotypes Data obtained from Wormbase WS150, curated by K. Chaudary and T. Carlow, New England Biolabs
  • nmpdr Genome-scale essentiality datasets from published studies (M. tuberculosis) National Microbial Pathogen Data Resource
  • alsford High-throughput phenotyping using parallel sequencing of RNA interference targets in the African trypanosome Genome Res 2011, 21:915-924
  • yeastgenome Systematic deletion of yeast genes Saccharomyces Genome Database
  • sidik A Genome-wide CRISPR Screen in Toxoplasma Identifies Essential Apicomplexan Genes. Sidik, Saima M., et al. "A genome-wide CRISPR screen in toxoplasma identifies essential apicomplexan genes." Cell 166.6 (2016): 1423-1435.
  • goodall The Essential Genome of Escherichia coli K-12 (Transposon directed high-throughput mutagenesis) Goodall, Emily CA, et al. "The essential genome of Escherichia coli K-12." mBio 9.1 (2018): e02096-17.
  • gerdes Experimental determination and system-level analysis of essential genes in E. coli MG1655 Gerdes et al., J Bacteriol. 2003 185:5673-84
  • wormbase C. elegans RNAi experiments WormBase web site, http://www.wormbase.org, release WS170
  • shigen Profiling of E. coli Chromosome (PEC) National Institute of Genetics, Japan
  • keio Systematic single-gene knock-out mutants of E. coli K12 The Keio Collection
  • plasmo Functional Profiling of a Plasmodium Genome Reveals an Abundance of Essential Genes. Bushell, Ellen, et al. "Functional profiling of a Plasmodium genome reveals an abundance of essential genes." Cell 170.2 (2017): 260-272.
  • blattner Systematic mutagenesis of the E. coli (MG1655) genome J Bacteriol 2004, 186:4921-4930

Phenotypes and Validation (curated)

We have no manually annotated phenotypes for this target. What does this mean? / Care to help?

In TDR Targets, information about phenotypes that are caused by drugs, or by genetic manipulation of cells (e.g. gene knockouts or knockdowns) is manually curated from the literature. These descriptions help to describe the potential of the target for drug development. If no information is available for this gene or if the information is incomplete, this may mean that i) the papers containing this information either appeared after the curation effort for this organism was carried out or they were inadvertently missed by curators; or that ii) the curation effort for this organism has not yet started.

In any case, if you have information about papers containing relevant validation data for this target, please contact us.


Annotated validation

No validation data for this target

Associated compounds / Druggability

Known modulators for this target

No chemical compounds associated to this gene

Predicted associations

By orthology with druggable targets
Non orthologous druggable targets
By sequence similarity to non orthologous druggable targets
No additional associated druggable targets

Obtained from network model

Ranking Plot


Putative Drugs List


Compound Raw Global Species
0.0098 0.2791 1
0.0216 0.2618 0.8521
0.0633 0.2923 1
0.0698 0.2931 1
0.0094 0.2714 1
0.0464 0.2786 1
0.0669 0.2886 1
0.0223 0.26 1
0.0785 0.2704 1
0.0618 0.2871 1
0.015 0.2674 1
0.0785 0.2704 1
0.0545 0.2643 1
0.0664 0.2857 1
0.0123 0.2765 1
0.0698 0.2931 1
0.0159 0.2625 1
0.0181 0.2807 1
0.0035 0.2698 1
0.0723 0.2871 1
0.0633 0.2923 1
0.0595 0.2845 1
0.0148 0.258 1
0.021 0.2894 0.3875
0.0183 0.2861 0.3546
0.0563 0.2909 1
0.0223 0.26 1
0.0563 0.2909 1
0.0691 0.2869 1
0.0157 0.2657 1
0.0122 0.2856 1
0.0059 0.2747 1
0.0086 0.2759 1
0.0119 0.2524 1
0.0723 0.2871 1
0.0035 0.2698 1
0.0176 0.2789 1
0.0118 0.2755 1
0.0669 0.2867 1
0.0723 0.2871 1
0.0653 0.2825 1
0.0124 0.251 1
0.0205 0.2752 1
0.0093 0.2537 1
0.0182 0.2851 1
0.0661 0.2861 1
0.0229 0.2656 1
0.0654 0.286 1
0.0179 0.2611 1
0.0061 0.2651 1
0.065 0.2601 1
0.0563 0.2909 1
0.0213 0.2884 0.4655
0.0723 0.2871 1
0.0163 0.2852 0.3367
0.0573 0.2559 1
0.0563 0.2909 1
0.0155 0.2518 1

Assayability

Assay information

No assay information for this target.

Reagent availability

No reagent availability information for this target.

Bibliographic References

No literature references available for this target.

If you have references for this gene, please enter them in a user comment (below) or Contact us.

User comments

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Gene identifier PVX_119615 (Plasmodium vivax), hypothetical protein, conserved
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